Human Revolution had one of the best gaming preludes. You had no augmentations, and then you get rocked. The opening credits while you're in surgery, chefs kiss. Obligatory "I never asked for this"
Though this site is under appreciated and less than up to date now they produced a fantastic interview with the director and opening sequence director. The additional images and videos make it really shine.
Interestingly a few people really dislike the intro to both DXHR and DXMD - and contrast it with the original Deus Ex where you effectively just hop in and start running around liberty island. If they added a skip to those sequences or created a "New Game (post-intro)" option on completion that might have been nice.
Both games definitely feel rushed gameplay and story-wise, I always wonder what they'd look like if they got a bit more love
I thought the mankind divided opening was pretty good as well. The terrorist attack really surprised me, and for a few seconds I felt like I was there.
Deus ex is by far my favourite universe, it's such a shame it isn't better developed.
Opening credits: https://www.youtube.com/watch?v=XIqJaT3cvf8